• 板蕎麦 香り家 Kaoriya (Ebisu)
  • Sesame dipping sauce and excellent tempura. Good sake selection
• 鎌倉　松原庵　欅 (Kamakura Matsubara-An Keyaki, Harajuku)
  • Matsubara-An's appetizer set is really great, almost as good as the soba
  • Reserve ahead of time for Omotesando views
• Sato Yosuke (Ginza)
• Ichi-an Maruyama (Tokyo)
• Kameya (Shinjuku)

Plenty of places, haven't really explored personally. Look: https://tabelog.com/tokyo/rstLst/soba/?SrtT=rt&Srt=D&sort_mode=1